Commands in the package
t_coffee
About t-coffee
From Debian's package description
T-Coffee is a multiple sequence alignment package. Given a set of sequences (Proteins or DNA), T-Coffee generates a multiple sequence alignment. Version 2.00 and higher can mix sequences and structures.
T-Coffee allows the combination of a collection of multiple/pairwise, global or local alignments into a single model. It can also estimate the level of consistency of each position within the new alignment with the rest of the alignments. See the pre-print for more information
T-Coffee has a special called M-Coffee that makes it possible to combine the output of many multiple sequence alignment packages. In its published version, it uses MUSCLE, PROBCONS, POA, DiAlign-TS, MAFFT, Clustal W, PCMA and T-Coffee. A special version has been made for Debian, DM-Coffee, that uses only free software by replacing Clustal W by Kalign. Using the 8 Methods of M-Coffee can sometimes be a bit heavy. You can use a subset of your favorite methods if you prefer.
From Debian's description of the t-coffee package, under that package's license.
Dependencies
Depends on
libc6libgcc-s1libstdc++6
Recommends
amap-alignclustaloclustalwdialign-txfsakalignlibsoap-lite-perllibxml-simple-perlmafftmusclemustangncbi-blast+poaprankprobconsprodatm-align
Related apps
- mummerEfficient sequence alignment of full genomesCommand line
- fsaFast Statistical Alignment of protein, RNA or DNA sequencesCommand line
- samtoolsprocessing sequence alignments in SAM, BAM and CRAM formatsCommand line
- muscleMultiple alignment program of protein sequencesCommand line
- clustaloGeneral-purpose multiple sequence alignment program for proteinsCommand line
- mafftMultiple alignment program for amino acid or nucleotide sequencesCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the t-coffee package, under that package's license.
- Description: Debian's description of the t-coffee package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
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